SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
GFF3 to GenBank convert sphil Bioinformatics 4 05-18-2012 07:59 AM
genbank2gff.pl (Genbank 2 GFF problem) mcastell Bioinformatics 1 12-16-2011 06:26 AM
Assembled sequence submission to Genbank? Melissa General 0 04-26-2011 12:54 AM
gff3 to gff converter tg Bioinformatics 1 03-21-2010 01:53 PM
Converting genbank accession to UCSC warrenemmett Bioinformatics 0 08-17-2009 05:47 AM

Reply
 
Thread Tools
Old 02-15-2012, 03:44 AM   #1
deMan
Junior Member
 
Location: Langenboom, Netherlands

Join Date: Oct 2009
Posts: 3
Default GFF 2 genbank converter

Is there an easy way to convert gff + fasta files to genbank files?
deMan is offline   Reply With Quote
Old 02-16-2012, 03:48 AM   #2
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,382
Default

No, just various levels of hassle. GFF (even GFF3) is very broad and can include all sorts of things which don't simple map onto the relatively narrow and proscribed GenBank format.
maubp is offline   Reply With Quote
Old 02-16-2012, 12:14 PM   #3
deMan
Junior Member
 
Location: Langenboom, Netherlands

Join Date: Oct 2009
Posts: 3
Default

But it should be possible for a GFF file holding only CDS regions isn't it?
deMan is offline   Reply With Quote
Old 02-16-2012, 01:33 PM   #4
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,382
Default

If your GFF file has CDS regions then it is certainly possible. I think there are some BioPerl based scripts that can do this...
maubp is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 06:30 PM.


Powered by vBulletin® Version 3.8.6
Copyright ©2000 - 2014, Jelsoft Enterprises Ltd.